NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0207684_10000060

Scaffold Ga0207684_10000060


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000060 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)205816
Total Scaffold Genes206 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)126 (61.17%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002096Metagenome / Metatranscriptome594Y
F004501Metagenome435Y
F020672Metagenome222Y
F040046Metagenome162Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_1000006014F004501GGCGGLIDPKDVVIAILGSASALAGFVLVFLGIIIASYQSYPGGVPEKVVRPYRIAGGALLGGFALGLVTVAVSLAWLVAGGSSVLYALAIALFAVLLAIVFGGALWATRMVLWQ
Ga0207684_1000006032F002096N/AMHFIICWVLHQKEREVLLRGVLPWGIDAVVFCWRCDRMRGRAVRVLQLTPSGIHACSGTH
Ga0207684_1000006047F020672N/AVPREYTTIVLHVDKERAKEFEKLFEQEELKRWDDYTTRGRFVEARLIRCRYSALESDGIQDYVLHVVTADEHAHHEHDEDPGFKAYNERADAFQPEEPTVTFGDLVFERKAQPAS
Ga0207684_1000006078F040046AGGAVDMEVGRPGHAPRLQFRAVAYVVEGLAFVAGGLLIAGGLYLVMRGAFPAWWQQRLLWPLVRVTPTVAHMQGVAAIGLGASIVTIVLTSVVSEAVGGILVLVAFLAYLVALALFLFSTWLSRRPA
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